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Table 2 T-DNA insertion sites of various mutants

From: Identification of novel genes in the carotenogenic and oleaginous yeast Rhodotorula toruloides through genome-wide insertional mutagenesis

Sequence codea

Genic siteb,c

Best hitd

Annotatione

Organism f

Identityg

RB sequences

 RCM1

Upstream-0.5 kb

XP_001549261

cellulose-binding GDSL lipase/acylhydrolase

Botryotinia fuckeliana

26%

 RCM2

Upstream-1.0 kb

GENE ID: 5,545,759 Kpol_534p16

mannosyltransferase

Vanderwaltozyma polyspora

77%

 RCM3

Upstream-0.5 kb

XP_001789963

regulator of nonsense transcripts; NADP-dependent isocitrate dehydrogenase

Bos taurus

40%

 RCM4

Genic sequence

XP_001607008.2

protein bric-a-brac 2 isoform X1

Nasonia vitripennis

29%

 RCM5

Upstream-0.5 kb

XP_003174510

C6 zinc finger domain-containing protein

Arthroderma gypseum

32%

 RCM6

Genic sequence

XP_001629556

Fatty aldehyde dehydrogenase

Nematostella vectensis

51%

 RCM7

Genic sequence

XP_571856

Hexose transport-related protein

Cryptococcus neoformans

53%

 RCM8

Genic sequence

XP_001731990

Transcription initiation factor TFIID subunit 2

Malassezia globosa

40%

 RCM9

Genic sequence

NP_001125572

stAR-related lipid transfer protein 3

Pongo abelii

29%

 RCM10

Upstream-1.0 kb

XP_001645395

GPI mannosyltransferase 3

Vanderwaltozyma polyspora

77%

 RCM11

Upstream-0.5 kb

XP_662119

Cell wall protein that functions in the transfer of chitin to beta (1–6) glucan

Aspergillus nidulans

36%

 RCM12

NAh

–

–

–

–

 RNM1

Downstream 0.3 kb

AAC98967.2

omega-3 fatty acid desaturase

Vernicia fordii

41%

 RNM2

NA

    

 RNM3

Upstream 0.5 kb

ZP_03104366

amino acid permease

Bacillus cereus W

87%

 RNM4

NA

    

 RTM1

Genic sequence

XP_016273537

SH3 domain-containing protein

Rhodotorula glutinis NP11

93%

 RTM2

Upstream 0.5 kb

EGU13095.1

salicylate hydroxylase

Rhodotorula glutinis ATCC 204091

73%

 RTM3

Genic sequence

XP_501740.1

nitrogen assimilation transcription factor

Yarrowia lipolytica

71%

 RTM4

Upstream 0.5 kb

ZP_08453184.1

putative zinc-binding oxidoreductase

Streptomyces sp.

47%

 RTM5

Genic sequence

ZP_07628725.1

putative lipoprotein

Prevotella amnii

45%

 RTM6

Genic sequence

YP_001220603.1

resolvase site-specific recombinase

Aeromonas bestiarum

94%

 RAM1

Genic sequence

XP_003032296

Riboflavin transporter MCH5

Schizophyllum commune

52%

 RAM2

Upstream-0.5 kb

YP_001220603

resolvase

Aeromonas bestiarum

95%

 RAM3

Genic sequence

XP_571856

hexose transport-related protein

Cryptococcus neoformans

36%

 RAM4

Genic sequence

XP_758766

TATA-binding protein associated factor

Ustilago maydis

35%

 RAM5

Genic sequence

AHB14354

phytoene synthase

Rhodosporidium diobovatum

98%

  1. aSequence codes are given according to the mutant names
  2. bT-DNA tagged genes were determined according to the BLASTx results
  3. c“Upstream 1.0 kb”, “Upstream 0.5 kb” and “Downstream 0.3 kb” denotes T-DNA inserted 501–1000 bp, 1–500 bp upstream of the putative translation initiation codon (ATG) and 1–300 bp downstream from the putative stop codon, respectively
  4. dBest hit denotes the BLASTx result with the highest E-score
  5. eAnnotations were determined according to the BLASTx results
  6. fMicroorganism denotes the host of Best hit
  7. gIdentity values were from BLASTx results
  8. hNot available due to poor sequencing result
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BMC Microbiology

ISSN: 1471-2180

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